Ccnl2 (cyclin L2) - Rat Genome Database

Name: Ccnl2
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

Gene: Ccnl2 (cyclin L2) Rattus norvegicus

Analyze

Symbol:

Ccnl2

Name:

cyclin L2

RGD ID:

1309149

Description:

Predicted to enable cyclin-dependent protein serine/threonine kinase regulator activity. Predicted to be involved in regulation of RNA splicing and regulation of transcription by RNA polymerase II. Predicted to be located in nucleoplasm. Predicted to be part of cyclin-dependent protein kinase holoenzyme complex. Predicted to be active in nucleus. Orthologous to human CCNL2 (cyclin L2); INTERACTS WITH 17beta-estradiol; 4,4'-diaminodiphenylmethane; 6-propyl-2-thiouracil.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

cyclin-L2; LOC298686

RGD Orthologs

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	CCNL2 (cyclin L2)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Ccnl2 (cyclin L2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Ccnl2 (cyclin L2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	CCNL2 (cyclin L2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	CCNL2 (cyclin L2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Ccnl2 (cyclin L2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	CCNL2 (cyclin L2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	LOC103225798 (cyclin-L2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Ccnl2 (cyclin L2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	AURKAIP1 (aurora kinase A interacting protein 1)	HGNC	EggNOG, Inparanoid, OrthoDB, PhylomeDB, Treefam
Alliance orthologs ³
Homo sapiens (human):	CCNL2 (cyclin L2)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Ccnl2 (cyclin L2)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	ccnl1b (cyclin L1b)	Alliance	DIOPT (OrthoFinder\|PANTHER)
Drosophila melanogaster (fruit fly):	CG16903	Alliance	DIOPT (InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	cyl-1	Alliance	DIOPT (InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	ccnl2	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	5	171,698,951 - 171,711,037 (+)	NCBI		GRCr8
mRatBN7.2	5	166,416,940 - 166,428,997 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	5	166,417,508 - 166,436,882 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	5	169,122,392 - 169,133,662 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	5	170,943,811 - 170,955,083 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	5	170,906,342 - 170,917,614 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	5	173,256,301 - 173,268,279 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	5	173,256,637 - 173,276,169 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	5	176,731,925 - 176,743,703 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	5	172,666,512 - 172,673,024 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	5	172,677,006 - 172,683,515 (+)	NCBI
Celera	5	164,618,287 - 164,624,788 (+)	NCBI		Celera
Cytogenetic Map	5	q36	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

chromosome 1p36 deletion syndrome (ISO)

congenital myasthenic syndrome 8 (ISO)

dilated cardiomyopathy 1LL (ISO)

Ehlers-Danlos syndrome spondylodysplastic type 2 (ISO)

genetic disease (ISO)

Goldberg-Shprintzen syndrome (ISO)

idiopathic generalized epilepsy (ISO)

immunodeficiency 16 (ISO)

immunodeficiency 38 (ISO)

Joubert syndrome 25 (ISO)

Neurodevelopmental Disorders (ISO)

Peroxisome Biogenesis Disorder, Complementation Group 7 (ISO)

Shprintzen-Goldberg Craniosynostosis (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(S)-nicotine (ISO)

1,2-dimethylhydrazine (ISO)

1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine (ISO)

17beta-estradiol (EXP)

2,3,7,8-tetrachlorodibenzodioxine (ISO)

2,3,7,8-Tetrachlorodibenzofuran (ISO)

3-isobutyl-1-methyl-7H-xanthine (ISO)

4,4'-diaminodiphenylmethane (EXP,ISO)

4,4'-sulfonyldiphenol (ISO)

6-propyl-2-thiouracil (EXP)

acetamide (EXP)

aflatoxin B1 (ISO)

Aflatoxin B2 alpha (ISO)

benzo[b]fluoranthene (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

butanal (ISO)

caffeine (ISO)

carbon nanotube (ISO)

CGP 52608 (ISO)

choline (ISO)

chrysene (ISO)

ciguatoxin CTX1B (ISO)

copper atom (EXP,ISO)

copper(0) (EXP,ISO)

copper(II) sulfate (ISO)

crocidolite asbestos (ISO)

cyclosporin A (ISO)

dexamethasone (ISO)

dibutyl phthalate (EXP)

diuron (EXP)

doxorubicin (ISO)

enniatin (EXP)

folic acid (ISO)

FR900359 (ISO)

fulvestrant (ISO)

indometacin (ISO)

L-methionine (ISO)

leflunomide (EXP)

lipopolysaccharide (ISO)

methamphetamine (ISO)

methapyrilene (EXP)

methimazole (EXP)

miconazole (ISO)

nefazodone (EXP)

nicotine (ISO)

ozone (ISO)

paracetamol (ISO)

pirinixic acid (EXP,ISO)

potassium dichromate (ISO)

pregnenolone 16alpha-carbonitrile (EXP)

propiconazole (ISO)

rotenone (EXP)

sodium arsenite (ISO)

sulfadimethoxine (EXP)

testosterone (ISO)

tetraphene (ISO)

thioacetamide (EXP)

tolcapone (EXP)

valproic acid (ISO)

vinclozolin (EXP)

zidovudine (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

regulation of RNA splicing (IEA,ISO)

regulation of transcription by RNA polymerase II (IBA,IEA)

Cellular Component

cyclin-dependent protein kinase holoenzyme complex (IEA,ISO)

intracellular membrane-bounded organelle (ISO)

nuclear speck (IEA)

nucleoplasm (ISO)

nucleus (IBA,ISO)

Molecular Function

cyclin-dependent protein serine/threonine kinase regulator activity (IBA,IEA)

protein binding (IPI,ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Identification and characterization of the CDK12/cyclin L1 complex involved in alternative splicing regulation.	Chen HH, etal., Mol Cell Biol. 2006 Apr;26(7):2736-45.
2.	Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
4.	Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences.	Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.

Additional References at PubMed

PMID:15057822	PMID:15489334	PMID:17494991

Genomics

Comparative Map Data

Ccnl2
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	5	171,698,951 - 171,711,037 (+)	NCBI		GRCr8
mRatBN7.2	5	166,416,940 - 166,428,997 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	5	166,417,508 - 166,436,882 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	5	169,122,392 - 169,133,662 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	5	170,943,811 - 170,955,083 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	5	170,906,342 - 170,917,614 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	5	173,256,301 - 173,268,279 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	5	173,256,637 - 173,276,169 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	5	176,731,925 - 176,743,703 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	5	172,666,512 - 172,673,024 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	5	172,677,006 - 172,683,515 (+)	NCBI
Celera	5	164,618,287 - 164,624,788 (+)	NCBI		Celera
Cytogenetic Map	5	q36	NCBI

CCNL2
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	1	1,385,711 - 1,399,335 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	1	1,385,711 - 1,399,335 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	1	1,321,091 - 1,334,715 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	1	1,310,954 - 1,324,553 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	1	1,246,539 - 1,260,165 (+)	NCBI		Celera
Cytogenetic Map	1	p36.33	NCBI
HuRef	1	593,397 - 606,925 (-)	NCBI		HuRef
CHM1_1	1	1,308,113 - 1,322,132 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	1	817,645 - 832,544 (-)	NCBI		T2T-CHM13v2.0

Ccnl2
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	4	155,894,468 - 155,909,005 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	4	155,896,946 - 155,909,000 (+)	Ensembl		GRCm39 Ensembl
GRCm38	4	155,810,219 - 155,824,543 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	4	155,812,489 - 155,824,543 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	4	155,186,598 - 155,198,652 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	4	154,656,289 - 154,668,343 (+)	NCBI		MGSCv36	mm8
Celera	4	158,083,766 - 158,095,796 (+)	NCBI		Celera
Cytogenetic Map	4	E2	NCBI
cM Map	4	87.47	NCBI

Ccnl2
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955486	9,423,491 - 9,432,811 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955486	9,423,491 - 9,432,811 (+)	NCBI	ChiLan1.0	ChiLan1.0

CCNL2
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	1	226,826,053 - 226,839,037 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	1	225,523,620 - 225,536,617 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	1	142,530 - 155,377 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	1	1,343,608 - 1,355,392 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	1	1,344,346 - 1,355,361 (-)	Ensembl	panpan1.1		panPan2

CCNL2
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	5	56,542,358 - 56,550,701 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	5	56,542,566 - 56,550,691 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	5	56,618,538 - 56,626,881 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	5	56,744,445 - 56,752,791 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	5	56,744,452 - 56,752,793 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	5	56,735,164 - 56,743,507 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	5	56,627,430 - 56,635,773 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	5	57,017,713 - 57,026,057 (-)	NCBI		UU_Cfam_GSD_1.0

Ccnl2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024405058	27,692,794 - 27,700,958 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936737	1,764,189 - 1,772,475 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936737	1,765,027 - 1,773,156 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CCNL2
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	6	63,659,054 - 63,668,047 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	6	63,659,053 - 63,668,077 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	6	58,269,483 - 58,271,859 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

LOC103225798
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	20	130,049,590 - 130,065,241 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	20	130,049,646 - 130,065,881 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666054	34,588,417 - 34,603,111 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Ccnl2
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624818	8,233,574 - 8,242,542 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624818	8,233,547 - 8,242,547 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Ccnl2
49 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	93
Count of miRNA genes:	71
Interacting mature miRNAs:	84
Transcripts:	ENSRNOT00000025531
Prediction methods:	Miranda, Rnahybrid, Targetscan
Result types:	miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.

QTLs in Region (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1576314	Eutr1	Estrogen induced uterine response QTL 1			uterus integrity trait (VT:0010575)	pyometritis severity score (CMO:0002009)	5	2138965	166875058	Rat
1302790	Scl20	Serum cholesterol level QTL 20	6.4	0.0001	blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	5	82394392	166664054	Rat
1641920	Colcs1	Colorectal carcinoma susceptibility QTL 1	2.99	0.0055	intestine integrity trait (VT:0010554)	benign colorectal tumor surface area measurement (CMO:0001799)	5	121846814	166846814	Rat
10053720	Scort26	Serum corticosterone level QTL 26	2.06	0.0147	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	5	124965598	166875058	Rat
724525	Bp147	Blood pressure QTL 147	4.3	0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	126424772	166875058	Rat
1598819	Bp292	Blood pressure QTL 292	4.3		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	127798274	166875058	Rat
1598861	Cm64	Cardiac mass QTL 64	2.9		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	5	127798274	166875058	Rat
8552908	Pigfal4	Plasma insulin-like growth factor 1 level QTL 4	6.6		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	5	128506074	166875058	Rat
8694169	Bw148	Body weight QTL 148	5	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	5	128506074	166875058	Rat
634349	Bp139	Blood pressure QTL 139		0.001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	128924607	166875058	Rat
738018	Anxrr4	Anxiety related response QTL 4	5.1		exploratory behavior trait (VT:0010471)	percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)	5	130130159	166875058	Rat
7794791	Mcs33	Mammary carcinoma susceptibility QTL 33	1.93		mammary gland integrity trait (VT:0010552)	mammary tumor incidence/prevalence measurement (CMO:0000946)	5	131345754	166875058	Rat
631562	Apr2	Acute phase response QTL 2	3.7		blood murinoglobulin 1 amount (VT:0010597)	plasma murinoglobulin 1 level (CMO:0001931)	5	135927956	166875058	Rat
61444	Strs2	Sensitivity to stroke QTL 2	4.7		cerebrum integrity trait (VT:0010549)	post-insult time to onset of cerebrovascular lesion (CMO:0002343)	5	135929696	166875058	Rat
1331721	Bp210	Blood pressure QTL 210	3.413		arterial blood pressure trait (VT:2000000)	blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)	5	143069996	166846814	Rat
631272	Lanf1	Left ventricular atrial natriuretic factor QTL 1	12		heart left ventricle natriuretic peptide A amount (VT:0010596)	heart left ventricle natriuretic peptide A level (CMO:0002165)	5	151113452	166875058	Rat
1549904	Neuinf1	Neuroinflammation QTL 1	3	0	nervous system integrity trait (VT:0010566)	blood T lymphocyte count (CMO:0000110)	5	154828214	166875058	Rat

Markers in Region

RH144311

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	166,422,663 - 166,422,796 (+)	MAPPER	mRatBN7.2
Rnor_6.0	5	173,261,946 - 173,262,078	NCBI	Rnor6.0
Rnor_5.0	5	176,737,560 - 176,737,692	UniSTS	Rnor5.0
RGSC_v3.4	5	172,671,627 - 172,671,759	UniSTS	RGSC3.4
Celera	5	164,623,391 - 164,623,523	UniSTS
RH 3.4 Map	5	1164.4	UniSTS
Cytogenetic Map	5	q36	UniSTS

AA955673

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	166,420,765 - 166,420,900 (+)	MAPPER	mRatBN7.2
Rnor_6.0	5	173,260,048 - 173,260,182	NCBI	Rnor6.0
Rnor_5.0	5	176,735,662 - 176,735,796	UniSTS	Rnor5.0
RGSC_v3.4	5	172,669,727 - 172,669,861	UniSTS	RGSC3.4
Celera	5	164,621,493 - 164,621,627	UniSTS
RH 3.4 Map	5	1175.1	UniSTS
Cytogenetic Map	5	q36	UniSTS

Expression

RNA-SEQ Expression

High: > 1000 TPM value Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM Below Cutoff: < 0.5 TPM

	alimentary part of gastrointestinal system	circulatory system	endocrine system	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	appendage
High
Medium	3	43	57	41	19	41	8	11	74	35	41	11	8
Low
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001401305	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NM_001401307	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006239544	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017593316	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039109721	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063287498	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063287499	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063287500	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_005504417	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_592798	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC106940	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC088316	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473968	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ210439	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ211043	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000005	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSRNOT00000025531 ⟹ ENSRNOP00000025531

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	5	166,417,508 - 166,435,860 (+)	Ensembl
Rnor_6.0 Ensembl	5	173,256,637 - 173,275,340 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000025952 ⟹ ENSRNOP00000025952

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	5	166,435,194 - 166,436,882 (+)	Ensembl
Rnor_6.0 Ensembl	5	173,274,774 - 173,276,169 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000089936 ⟹ ENSRNOP00000068952

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	5	166,417,540 - 166,428,800 (+)	Ensembl
Rnor_6.0 Ensembl	5	173,256,834 - 173,263,334 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000096422 ⟹ ENSRNOP00000077305

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	5	166,417,550 - 166,428,797 (+)	Ensembl

RefSeq Acc Id:

NM_001401305 ⟹ NP_001388234

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	5	171,699,775 - 171,711,037 (+)	NCBI
mRatBN7.2	5	166,417,540 - 166,428,802 (+)	NCBI

RefSeq Acc Id:

NM_001401307 ⟹ NP_001388236

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	5	171,699,775 - 171,707,417 (+)	NCBI
mRatBN7.2	5	166,417,540 - 166,425,182 (+)	NCBI

RefSeq Acc Id:

XM_006239544 ⟹ XP_006239606

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	5	171,698,951 - 171,711,035 (+)	NCBI
mRatBN7.2	5	166,416,954 - 166,428,997 (+)	NCBI
Rnor_6.0	5	173,256,306 - 173,268,279 (+)	NCBI
Rnor_5.0	5	176,731,925 - 176,743,703 (+)	NCBI

Sequence:

show sequence

GAGGTCCGCCTGCTTCTGCCTTCCAAGTGCTGGGATTAAAGGCACCACTGCCCCGCTTTCTTCT
GCACCTTTAATGCTGGCAGATCCACCCCACAGCCAGAGGACAGAAGAGGGTTGCGAACTAAAGA
CCCTGAACTAAATCGCGGTGTAATGTACACATGAGACTGTGGAGAAAAAGGGTTGTTCTGTCCC
GATCCCCGCGGAAAGACTCCCTTCTAGAACCCCAGTTTTCGAGGCAGAAGCACTGTAACCTCCG
GATTTCGAGACAGTAGCCTTGTAATCTCCTGGCTTTCTGGATTGACCACTTCCGGTTCGGGCCA
GGCCGCGGAGCCAAGTGGGTAACGAGCAGCCCCACCCGTGGGTACTTCCGGCGTCAGTGCCTGA
CGCGATACTGAAGGACTGGTCGTACGGCCAACGGCGTCGAGACAGCGGTGACGTTCAACCAATG
GAAGGGGGTGGGGCGGGGCGGCCATGATCGTCTCGAGCAGCCGCCCTGACGGGAAGGGCCCGAA
AAGAGTCGGCGGCACAAAATGGCGGCGGCGGCAGCCGGGGCTTCGGGGTTGATGGCTCCTGCGT
TGGCGGCCTGCTCTTCCGGCTCGGGGGGAGCAGCCCCAGGGTCTCAGGGGGTGCTGATCGGTGA
CAGGCTATACTCCGGAGTTCTCATCACCTTGGAAAACTGCCTGCTGCCCGACGACAAGCTCCGC
TTCACGCCATCCATGTCGAGCGGTCTCGACATCGATACAGAGACTGGACTCCGCGTAGTGGGCT
GCGAGCTCATCCAGGCAGCCGGCATCCTACTCCGCCTGCCGCAGGTGGCCATGGCTACAGGGCA
GGTGTTGTTCCAGCGCTTCTTTTACACTAAGTCCTTCGTGAAACATTCCATGGAGCATGTGTCC
ATGGCTTGTGTTCACCTGGCTTCCAAAATAGAAGAGGCTCCAAGACGAATCAGAGATGTCATCA
ACGTATTCCATCGCCTTCGGCATCTGCGAGAGAAAAAGAAACCTGTGCCTCTGGTGCTGGATCA
AGAGTATGTTAATCTGAAGAACCAGATTATAAAGGCAGAGAGACGGGTTCTCAAGGAATTGGGC
TTTTGTGTCCATGTGAAGCATCCTCACAAGATAATCGTTATGTACCTTCAGGTGTTAGAATGTG
AGCGTAATCAGCACCTGGTCCAGACTGCATGGAACTACATGAATGACAGCCTTCGCACAGATGT
CTTTGTGCGGTTCCAGCCTGAAAGCATTGCTTGTGCCTGTATCTACCTTGCTGCCCGGACACTG
GAGATCCCTTTACCTAATCGTCCACATTGGTTTCTTTTGTTTGGAGCAACTGAAGAGGAAATTC
AAGAAATTTGCTTTAAAATCTTGCAGCTTTATACACGGAAAAAGGTTGACTTGACGCATCTGGA
AAGTGAAGTGGAAAAGAGAAAGCACGCCATCGAAGAGGCAAAGGCACGAGCCAAGGGTCTGCTG
CCACCAGGGAGTGCGCCAGGCTTGGACAGTGCTACTGCAGGGTTCTCACCCGCTCCCAAGCCGG
TAGAATCCCCCAAAGAAGGTAAAGGAAGCAAGTCTTCCCCACTCTCTGTAAAGAATGCCAAACG
GAAAATGGAAGGCCCAAAGAAAGCCAAGGGCGACAGCCCTGTAAATGGCTTGCTAAAAGGGCAG
GAGAGTCGAAGTCAAAGCAGGAGTCGTGAGCAGAGCTACTCAAGGTCCCCATCACGGTCTGCTT
CTCCAAAGAGAAGGAAAAGTGATAGTGGCTCTACCTCAGGGGGGTCCAAGTCACAGAGTCGTTC
TCGGAGCCGCAGTGACTCTCCTCCAAGGCAAGTACACCGTGGTGCTCCCTACAAAGGCTCAGAA
GTGAGGGGCTCCCGGAAATCCAAGGACTGCAAGCACCTCACCCAGAAGCCACACAAGTCTCGTA
GCCGGAGCTCCTCCCGTTCCCGCAGCCGGTCACGAGAACGGACAGACAGTTCTGGAAAATACAA
GAAGAAAAGTCATTACTATAGAGATCAAAGACGGGAGCGCTCAAGGTCATATGAGCGCACAGGC
CATCGATATGAGAGGGACCACCCTGGACACAGCAGGCATCGGAGGTGAGATAGGTTCCCTGGTG
GCTGCCCTTGGTCCCTCCCTGTTGGGCACACCTTGGCTTCAGTGGCCTTGTCACATAATGTTTT
TTTAAAGTGTTTTTGATTGGACCTTGAGGTGAATTTGACAGTGGGCAAGGTGCCCTTCAGGCTG
GCCTGGGGAGTGCTGCACATCTGTCCTAGGTAATGGTCCACCTCAACTGCAGACCTTCAGGTAG
CTGGATGGAACAGCAAAGGCACACGCCTCCACTGGCGTGGCTTGGTGCTATTGACAAGCTGTCT
CTTCACTCCTAAACTGATACTCAATTACGTTAAGCCAAGAAAGATGATTTTTCAAATCTTTGCC
TATATTAGGTTGTACTTGTGTACATATTTTGCAGTGGTTCACAATGAGAAAATGGCCTTAATAG
CCCCCTTGTTCTCTATTCACGTTGTAAATAAACATGTTTAATACAAGTGAAAGCTATATATGAG
AACTCAGAATTTGATTCTGTTAGCTTAACACTTGTATAGAAAATTGAGATTTTTAAAATGTGAA
GGTATTTAGGTCTGTGTTGAAAGTCATATATTTTTATCTGTGCAATGCTGAGTGCAGGCCACCA
GCTCGAGAGAAATTTTACGTGGTTGAATAAACAATTCTCAGGACACTTGTTATGTAAGACTTTG
TGGGCTGTCATTTTGGTTTTTTTTTGTGTGTGTGTGTGCATGCCTGGGATTTGGCTGTGGGACT
CAGGCCTGGTGGGAGTATTTGTGTGCAACTGTGCACTGCCAGCTTAGCTATTCTAGGGGCTGTA
TGAGCTGTGTATTCCCTGGTCCTTCATCCCTCTTCTCATTAAAGTGTTGGATTTTGTACTGA

hide sequence

RefSeq Acc Id:

XM_039109721 ⟹ XP_038965649

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	5	171,698,951 - 171,711,035 (+)	NCBI
mRatBN7.2	5	166,416,952 - 166,428,997 (+)	NCBI

RefSeq Acc Id:

XM_063287498 ⟹ XP_063143568

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	5	171,698,951 - 171,711,035 (+)	NCBI

RefSeq Acc Id:

XM_063287499 ⟹ XP_063143569

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	5	171,705,820 - 171,711,035 (+)	NCBI

RefSeq Acc Id:

XM_063287500 ⟹ XP_063143570

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	5	171,698,951 - 171,708,404 (+)	NCBI

RefSeq Acc Id:

XR_005504417

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	5	171,698,951 - 171,707,633 (+)	NCBI
mRatBN7.2	5	166,416,944 - 166,425,479 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_001388234	(Get FASTA)	NCBI Sequence Viewer
	NP_001388236	(Get FASTA)	NCBI Sequence Viewer
	XP_006239606	(Get FASTA)	NCBI Sequence Viewer
	XP_038965649	(Get FASTA)	NCBI Sequence Viewer
	XP_063143568	(Get FASTA)	NCBI Sequence Viewer
	XP_063143569	(Get FASTA)	NCBI Sequence Viewer
	XP_063143570	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH88316	(Get FASTA)	NCBI Sequence Viewer
	EDL81328	(Get FASTA)	NCBI Sequence Viewer
	EDL81329	(Get FASTA)	NCBI Sequence Viewer
	EDL81330	(Get FASTA)	NCBI Sequence Viewer
	EDL81331	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000025531.4
	ENSRNOP00000068952
	ENSRNOP00000068952.2
	ENSRNOP00000077305.1
GenBank Protein	Q5I0H5	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:	XP_006239606 ⟸ XM_006239544
- Peptide Label:	isoform X1
- UniProtKB:	A6IUS7 (UniProtKB/TrEMBL)
- Sequence:	show sequence MAAAAAGASGLMAPALAACSSGSGGAAPGSQGVLIGDRLYSGVLITLENCLLPDDKLRFTPSMS SGLDIDTETGLRVVGCELIQAAGILLRLPQVAMATGQVLFQRFFYTKSFVKHSMEHVSMACVHL ASKIEEAPRRIRDVINVFHRLRHLREKKKPVPLVLDQEYVNLKNQIIKAERRVLKELGFCVHVK HPHKIIVMYLQVLECERNQHLVQTAWNYMNDSLRTDVFVRFQPESIACACIYLAARTLEIPLPN RPHWFLLFGATEEEIQEICFKILQLYTRKKVDLTHLESEVEKRKHAIEEAKARAKGLLPPGSAP GLDSATAGFSPAPKPVESPKEGKGSKSSPLSVKNAKRKMEGPKKAKGDSPVNGLLKGQESRSQS RSREQSYSRSPSRSASPKRRKSDSGSTSGGSKSQSRSRSRSDSPPRQVHRGAPYKGSEVRGSRK SKDCKHLTQKPHKSRSRSSSRSRSRSRERTDSSGKYKKKSHYYRDQRRERSRSYERTGHRYERD HPGHSRHRR hide sequence

RefSeq Acc Id:

ENSRNOP00000068952 ⟸ ENSRNOT00000089936

RefSeq Acc Id:

ENSRNOP00000025531 ⟸ ENSRNOT00000025531

RefSeq Acc Id:

ENSRNOP00000025952 ⟸ ENSRNOT00000025952

RefSeq Acc Id:	XP_038965649 ⟸ XM_039109721
- Peptide Label:	isoform X2
- UniProtKB:	A0A8I5Y5M3 (UniProtKB/TrEMBL)

RefSeq Acc Id:

ENSRNOP00000077305 ⟸ ENSRNOT00000096422

RefSeq Acc Id:	NP_001388234 ⟸ NM_001401305
- Peptide Label:	isoform 1
- UniProtKB:	Q5I0H5 (UniProtKB/Swiss-Prot)

RefSeq Acc Id:	NP_001388236 ⟸ NM_001401307
- Peptide Label:	isoform 2

RefSeq Acc Id:	XP_063143568 ⟸ XM_063287498
- Peptide Label:	isoform X3

RefSeq Acc Id:	XP_063143570 ⟸ XM_063287500
- Peptide Label:	isoform X5

RefSeq Acc Id:	XP_063143569 ⟸ XM_063287499
- Peptide Label:	isoform X4

Protein Domains

Cyclin C-terminal Cyclin-like

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q5I0H5-F1-model_v2	AlphaFold	Q5I0H5	1-520	view protein structure

Transcriptome

eQTL		View at Phenogen
WGCNA		View at Phenogen
Tissue/Strain Expression		View at Phenogen

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1309149	AgrOrtholog
BioCyc Gene	G2FUF-38896	BioCyc
Ensembl Genes	ENSRNOG00000018691	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000025531.7	UniProtKB/TrEMBL
	ENSRNOT00000089936	ENTREZGENE
	ENSRNOT00000089936.2	UniProtKB/TrEMBL
	ENSRNOT00000096422.1	UniProtKB/TrEMBL
Gene3D-CATH	Cyclin-like	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7325177	IMAGE-MGC_LOAD
InterPro	Cyclin-like	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Cyclin-like_sf	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Cyclin/Ssn8	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Cyclin_C-dom	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Cyclin_N	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	rno:298686	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:109544	IMAGE-MGC_LOAD
NCBI Gene	298686	ENTREZGENE
PANTHER	CYCLIN-L2	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	PTHR10026	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam	Cyclin_C	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Cyclin_N	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen	Ccnl2	PhenoGen
PIRSF	Cyclin_L	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000018691	RatGTEx
SMART	CYCLIN	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Cyclin_C	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP	SSF47954	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt	A0A0H2UHQ5_RAT	UniProtKB/TrEMBL
	A0A8I5Y5M3	ENTREZGENE, UniProtKB/TrEMBL
	A0A8L2QZY3_RAT	UniProtKB/TrEMBL
	A6IUS7	ENTREZGENE, UniProtKB/TrEMBL
	A6IUS8_RAT	UniProtKB/TrEMBL
	A6IUS9_RAT	UniProtKB/TrEMBL
	A6IUT0_RAT	UniProtKB/TrEMBL
	CCNL2_RAT	UniProtKB/Swiss-Prot, ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2005-12-06	Ccnl2	cyclin L2	Ccnl2_predicted	cyclin L2 (predicted)	Symbol and Name updated	1559027	APPROVED
2005-01-12	Ccnl2_predicted	cyclin L2 (predicted)			Symbol and Name status set to approved	70820	APPROVED

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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Imported Disease Annotations - ClinVar